Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,100,307 |
T→C |
51.4% |
N35N (AAT→AAC) |
ydiN → |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,100,307 | 0 | T | C | 51.4%
| 1.4
/ 64.1
| 74 | N35N (AAT→AAC) | ydiN | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base T (25/11); new base C (6/32); total (31/43) |
| Fisher's exact test for biased strand distribution p-value = 4.34e-06 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCATTGCCTACTTAA > minE/1100244‑1100362
|
ttttCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGt < 1:2385990/66‑1 (MQ=255)
tGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGt < 1:2887387/68‑1 (MQ=255)
tGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGt < 1:2793013/68‑1 (MQ=255)
cTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCAtct > 1:3222324/1‑69 (MQ=255)
cTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCAtct > 1:3263404/1‑69 (MQ=255)
cTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCAtct > 1:1476168/1‑69 (MQ=255)
taaGCTATTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGaaaa > 1:118001/3‑67 (MQ=255)
tCAGCTATTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGaaaa > 1:2066949/1‑67 (MQ=255)
tCAGCTATTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGaaaa > 1:1848051/1‑67 (MQ=255)
tCAGCTATTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGaaaa > 1:3096086/1‑67 (MQ=255)
tCAGCTATTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGaaaa > 1:1296371/1‑67 (MQ=255)
tCAGCTATTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGaaaa > 1:1684977/1‑67 (MQ=255)
cTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGc > 1:1446425/1‑57 (MQ=255)
cTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:3175537/1‑69 (MQ=255)
cTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:1740839/1‑69 (MQ=255)
cTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:1644082/1‑69 (MQ=255)
cTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:2841002/1‑69 (MQ=255)
cTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:3266185/1‑69 (MQ=255)
cTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:1173601/1‑69 (MQ=255)
cTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:947411/1‑69 (MQ=255)
tCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACt < 1:2820970/68‑1 (MQ=255)
tCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACt < 1:293635/68‑1 (MQ=255)
tCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACt < 1:2130560/68‑1 (MQ=255)
tCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACt < 1:497008/68‑1 (MQ=255)
tCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACt < 1:1934211/68‑1 (MQ=255)
tCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACt < 1:612477/68‑1 (MQ=255)
tCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACt < 1:882082/68‑1 (MQ=255)
tCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACt < 1:669295/68‑1 (MQ=255)
aTTAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGc < 1:1045506/69‑1 (MQ=255)
aTTAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGc < 1:465426/69‑1 (MQ=255)
ttAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCa < 1:1934381/69‑1 (MQ=255)
aGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCAtt > 1:785760/1‑69 (MQ=255)
ttttattaCGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCATTg < 1:1989399/66‑1 (MQ=255)
tgtTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCATTg < 1:1527548/68‑1 (MQ=255)
tgtTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCATTg < 1:2946709/68‑1 (MQ=255)
tgtTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCATTg < 1:2660921/68‑1 (MQ=255)
gtTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCATTg < 1:802769/67‑1 (MQ=255)
ttattaCGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCATTGCCt > 1:190485/1‑69 (MQ=255)
ttattaCGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCATTGCCt > 1:1295079/1‑69 (MQ=255)
attaCGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGt > 1:2597411/1‑40 (MQ=255)
attaCGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:1365626/1‑44 (MQ=255)
attaCGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:1512318/1‑44 (MQ=255)
attaCGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:1534939/1‑44 (MQ=255)
attaCGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:2465238/1‑44 (MQ=255)
attaCGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:1986176/1‑44 (MQ=255)
attaCGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTc > 1:3393166/1‑44 (MQ=255)
attaCGCTTGCCCAAAATATGTCATCTCTGGCCGAAAAGTTTTCCACTGACAACGCGGGCATTGCCTa > 1:645117/1‑68 (MQ=255)
attaCGCTTGCCCAAAATATGTCATATCTGGCGGAAAAGTTTTc > 1:3295980/1‑44 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:1081464/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:822916/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:3370645/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:3390352/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:3399778/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:3419994/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:3114475/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:2956316/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:3122879/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:1100327/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:1353362/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:1555002/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:1642379/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:2201377/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:2178211/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:2151983/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:2119809/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:1728570/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:1930863/57‑1 (MQ=255)
taCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:1953563/57‑1 (MQ=255)
aCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:974222/56‑1 (MQ=255)
aCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:555797/56‑1 (MQ=255)
aCGCTTGCCCAAAACATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:468142/56‑1 (MQ=255)
cGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCATTGCCTACTTaa > 1:388090/1‑69 (MQ=255)
cTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCATTGc > 1:2919915/1‑59 (MQ=255)
aaaCATGACATCTTTGGCAGAAAAGTTTTCCACTGACAACGCggg < 1:1699533/45‑1 (MQ=255)
tatGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCggg > 1:527931/1‑42 (MQ=255)
tatGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCggg > 1:1968082/1‑42 (MQ=255)
tatGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCggg > 1:772139/1‑42 (MQ=255)
tatGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCggg > 1:2533727/1‑42 (MQ=255)
tatGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCggg > 1:2547176/1‑42 (MQ=255)
tatGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCggg > 1:1407903/1‑42 (MQ=255)
tatGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCggg > 1:3266629/1‑42 (MQ=255)
tatGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCggg > 1:2903068/1‑42 (MQ=255)
|
TGTTCTTTGTATTTACTTCAGCTACTTCCTGCACGGCATTAGTGTTATTACGCTTGCCCAAAATATGTCATCTCTGGCGGAAAAGTTTTCCACTGACAACGCGGGCATTGCCTACTTAA > minE/1100244‑1100362
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
